VISDB Viral Integration Site DataBase

VIS ID

TVIS10007746

Fusion event

HBV-RBM6 integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

X protein|

Start

1685

Orient

-

Integrated sequence

CTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGT| |CAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTG

Chromosome

chr3

Cytoband

p21.31

Reference genome

Start

End

49999424/49961991 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-16-5p ; hsa-mir-221-3p ; hsa-let-7a-5p ; hsa-mir-218-5p

Nearest miRNA

hsa-mir-12127/Upstream/155746; hsa-let-7g/Downstream/265445;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/21228, chr3-CpG: 69/Downstream/126828

Nearest cancer related gene

RBM6(TSG, No orient, 0)

Upstream sequence

CAGCAGCTAATTTCCTACTTCCAAAATAAGAAAAGTGAAGAGAGAACCATTTTAGAGGGAGTTGAGGAAAGCTGTGAGGTTTCCATTGGGAAACACCATC

Downstream sequence

ctaaaatacaaaaaaattagctgggcggccggcgtgcgcctgtagttctagctacttgggaggctgaggcaggagaattgcttgaacccggaggttgcag